monai-weekly 1.5.dev2505__py3-none-any.whl → 1.5.dev2507__py3-none-any.whl
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- monai/__init__.py +1 -1
- monai/_version.py +3 -3
- monai/apps/auto3dseg/transforms.py +1 -4
- monai/data/meta_tensor.py +5 -0
- monai/data/utils.py +6 -13
- monai/inferers/utils.py +1 -2
- monai/losses/dice.py +2 -14
- monai/losses/ds_loss.py +1 -3
- monai/networks/layers/simplelayers.py +2 -14
- monai/networks/utils.py +4 -16
- monai/transforms/compose.py +28 -11
- monai/transforms/croppad/array.py +1 -6
- monai/transforms/io/array.py +0 -1
- monai/transforms/transform.py +15 -6
- monai/transforms/utils.py +1 -2
- monai/utils/jupyter_utils.py +1 -1
- monai/utils/tf32.py +0 -10
- monai/visualize/class_activation_maps.py +5 -8
- monai/visualize/img2tensorboard.py +2 -2
- {monai_weekly-1.5.dev2505.dist-info → monai_weekly-1.5.dev2507.dist-info}/METADATA +2 -2
- monai_weekly-1.5.dev2507.dist-info/RECORD +1181 -0
- {monai_weekly-1.5.dev2505.dist-info → monai_weekly-1.5.dev2507.dist-info}/top_level.txt +1 -0
- tests/apps/__init__.py +10 -0
- tests/apps/deepedit/__init__.py +10 -0
- tests/apps/deepedit/test_deepedit_transforms.py +314 -0
- tests/apps/deepgrow/__init__.py +10 -0
- tests/apps/deepgrow/test_deepgrow_dataset.py +109 -0
- tests/apps/deepgrow/transforms/__init__.py +10 -0
- tests/apps/deepgrow/transforms/test_deepgrow_interaction.py +97 -0
- tests/apps/deepgrow/transforms/test_deepgrow_transforms.py +556 -0
- tests/apps/detection/__init__.py +10 -0
- tests/apps/detection/metrics/__init__.py +10 -0
- tests/apps/detection/metrics/test_detection_coco_metrics.py +69 -0
- tests/apps/detection/networks/__init__.py +10 -0
- tests/apps/detection/networks/test_retinanet.py +210 -0
- tests/apps/detection/networks/test_retinanet_detector.py +203 -0
- tests/apps/detection/test_box_transform.py +370 -0
- tests/apps/detection/utils/__init__.py +10 -0
- tests/apps/detection/utils/test_anchor_box.py +88 -0
- tests/apps/detection/utils/test_atss_box_matcher.py +46 -0
- tests/apps/detection/utils/test_box_coder.py +43 -0
- tests/apps/detection/utils/test_detector_boxselector.py +67 -0
- tests/apps/detection/utils/test_detector_utils.py +96 -0
- tests/apps/detection/utils/test_hardnegsampler.py +54 -0
- tests/apps/nuclick/__init__.py +10 -0
- tests/apps/nuclick/test_nuclick_transforms.py +259 -0
- tests/apps/pathology/__init__.py +10 -0
- tests/apps/pathology/handlers/__init__.py +10 -0
- tests/apps/pathology/handlers/test_from_engine_hovernet.py +38 -0
- tests/apps/pathology/test_lesion_froc.py +333 -0
- tests/apps/pathology/test_pathology_prob_nms.py +55 -0
- tests/apps/pathology/test_prepare_batch_hovernet.py +70 -0
- tests/apps/pathology/test_sliding_window_hovernet_inference.py +303 -0
- tests/apps/pathology/transforms/__init__.py +10 -0
- tests/apps/pathology/transforms/post/__init__.py +10 -0
- tests/apps/pathology/transforms/post/test_generate_distance_map.py +51 -0
- tests/apps/pathology/transforms/post/test_generate_distance_mapd.py +70 -0
- tests/apps/pathology/transforms/post/test_generate_instance_border.py +49 -0
- tests/apps/pathology/transforms/post/test_generate_instance_borderd.py +59 -0
- tests/apps/pathology/transforms/post/test_generate_instance_centroid.py +53 -0
- tests/apps/pathology/transforms/post/test_generate_instance_centroidd.py +56 -0
- tests/apps/pathology/transforms/post/test_generate_instance_contour.py +58 -0
- tests/apps/pathology/transforms/post/test_generate_instance_contourd.py +61 -0
- tests/apps/pathology/transforms/post/test_generate_instance_type.py +51 -0
- tests/apps/pathology/transforms/post/test_generate_instance_typed.py +53 -0
- tests/apps/pathology/transforms/post/test_generate_succinct_contour.py +55 -0
- tests/apps/pathology/transforms/post/test_generate_succinct_contourd.py +57 -0
- tests/apps/pathology/transforms/post/test_generate_watershed_markers.py +53 -0
- tests/apps/pathology/transforms/post/test_generate_watershed_markersd.py +83 -0
- tests/apps/pathology/transforms/post/test_generate_watershed_mask.py +77 -0
- tests/apps/pathology/transforms/post/test_generate_watershed_maskd.py +77 -0
- tests/apps/pathology/transforms/post/test_hovernet_instance_map_post_processing.py +61 -0
- tests/apps/pathology/transforms/post/test_hovernet_instance_map_post_processingd.py +66 -0
- tests/apps/pathology/transforms/post/test_hovernet_nuclear_type_post_processing.py +66 -0
- tests/apps/pathology/transforms/post/test_watershed.py +60 -0
- tests/apps/pathology/transforms/post/test_watershedd.py +70 -0
- tests/apps/pathology/transforms/test_pathology_he_stain.py +230 -0
- tests/apps/pathology/transforms/test_pathology_he_stain_dict.py +225 -0
- tests/apps/reconstruction/__init__.py +10 -0
- tests/apps/reconstruction/nets/__init__.py +10 -0
- tests/apps/reconstruction/nets/test_recon_net_utils.py +82 -0
- tests/apps/reconstruction/test_complex_utils.py +77 -0
- tests/apps/reconstruction/test_fastmri_reader.py +82 -0
- tests/apps/reconstruction/test_mri_utils.py +37 -0
- tests/apps/reconstruction/transforms/__init__.py +10 -0
- tests/apps/reconstruction/transforms/test_kspace_mask.py +50 -0
- tests/apps/reconstruction/transforms/test_reference_based_normalize_intensity.py +77 -0
- tests/apps/reconstruction/transforms/test_reference_based_spatial_cropd.py +57 -0
- tests/apps/test_auto3dseg_bundlegen.py +156 -0
- tests/apps/test_check_hash.py +53 -0
- tests/apps/test_cross_validation.py +74 -0
- tests/apps/test_decathlondataset.py +93 -0
- tests/apps/test_download_and_extract.py +70 -0
- tests/apps/test_download_url_yandex.py +45 -0
- tests/apps/test_mednistdataset.py +72 -0
- tests/apps/test_mmar_download.py +154 -0
- tests/apps/test_tciadataset.py +123 -0
- tests/apps/vista3d/__init__.py +10 -0
- tests/apps/vista3d/test_point_based_window_inferer.py +77 -0
- tests/apps/vista3d/test_vista3d_sampler.py +100 -0
- tests/apps/vista3d/test_vista3d_transforms.py +94 -0
- tests/bundle/__init__.py +10 -0
- tests/bundle/test_bundle_ckpt_export.py +107 -0
- tests/bundle/test_bundle_download.py +435 -0
- tests/bundle/test_bundle_get_data.py +94 -0
- tests/bundle/test_bundle_push_to_hf_hub.py +41 -0
- tests/bundle/test_bundle_trt_export.py +147 -0
- tests/bundle/test_bundle_utils.py +149 -0
- tests/bundle/test_bundle_verify_metadata.py +66 -0
- tests/bundle/test_bundle_verify_net.py +76 -0
- tests/bundle/test_bundle_workflow.py +272 -0
- tests/bundle/test_component_locator.py +38 -0
- tests/bundle/test_config_item.py +138 -0
- tests/bundle/test_config_parser.py +392 -0
- tests/bundle/test_reference_resolver.py +114 -0
- tests/config/__init__.py +10 -0
- tests/config/test_cv2_dist.py +53 -0
- tests/engines/__init__.py +10 -0
- tests/engines/test_ensemble_evaluator.py +94 -0
- tests/engines/test_prepare_batch_default.py +76 -0
- tests/engines/test_prepare_batch_default_dist.py +76 -0
- tests/engines/test_prepare_batch_diffusion.py +104 -0
- tests/engines/test_prepare_batch_extra_input.py +80 -0
- tests/fl/__init__.py +10 -0
- tests/fl/monai_algo/__init__.py +10 -0
- tests/fl/monai_algo/test_fl_monai_algo.py +251 -0
- tests/fl/monai_algo/test_fl_monai_algo_dist.py +117 -0
- tests/fl/test_fl_monai_algo_stats.py +81 -0
- tests/fl/utils/__init__.py +10 -0
- tests/fl/utils/test_fl_exchange_object.py +63 -0
- tests/handlers/__init__.py +10 -0
- tests/handlers/test_handler_checkpoint_loader.py +182 -0
- tests/handlers/test_handler_checkpoint_saver.py +233 -0
- tests/handlers/test_handler_classification_saver.py +64 -0
- tests/handlers/test_handler_classification_saver_dist.py +77 -0
- tests/handlers/test_handler_clearml_image.py +65 -0
- tests/handlers/test_handler_clearml_stats.py +65 -0
- tests/handlers/test_handler_confusion_matrix.py +104 -0
- tests/handlers/test_handler_confusion_matrix_dist.py +70 -0
- tests/handlers/test_handler_decollate_batch.py +66 -0
- tests/handlers/test_handler_early_stop.py +68 -0
- tests/handlers/test_handler_garbage_collector.py +73 -0
- tests/handlers/test_handler_hausdorff_distance.py +111 -0
- tests/handlers/test_handler_ignite_metric.py +191 -0
- tests/handlers/test_handler_lr_scheduler.py +94 -0
- tests/handlers/test_handler_mean_dice.py +98 -0
- tests/handlers/test_handler_mean_iou.py +76 -0
- tests/handlers/test_handler_metrics_reloaded.py +149 -0
- tests/handlers/test_handler_metrics_saver.py +89 -0
- tests/handlers/test_handler_metrics_saver_dist.py +120 -0
- tests/handlers/test_handler_mlflow.py +296 -0
- tests/handlers/test_handler_nvtx.py +93 -0
- tests/handlers/test_handler_panoptic_quality.py +89 -0
- tests/handlers/test_handler_parameter_scheduler.py +136 -0
- tests/handlers/test_handler_post_processing.py +74 -0
- tests/handlers/test_handler_prob_map_producer.py +111 -0
- tests/handlers/test_handler_regression_metrics.py +160 -0
- tests/handlers/test_handler_regression_metrics_dist.py +245 -0
- tests/handlers/test_handler_rocauc.py +48 -0
- tests/handlers/test_handler_rocauc_dist.py +54 -0
- tests/handlers/test_handler_stats.py +281 -0
- tests/handlers/test_handler_surface_distance.py +113 -0
- tests/handlers/test_handler_tb_image.py +61 -0
- tests/handlers/test_handler_tb_stats.py +166 -0
- tests/handlers/test_handler_validation.py +59 -0
- tests/handlers/test_trt_compile.py +145 -0
- tests/handlers/test_write_metrics_reports.py +68 -0
- tests/inferers/__init__.py +10 -0
- tests/inferers/test_avg_merger.py +179 -0
- tests/inferers/test_controlnet_inferers.py +1310 -0
- tests/inferers/test_diffusion_inferer.py +236 -0
- tests/inferers/test_latent_diffusion_inferer.py +824 -0
- tests/inferers/test_patch_inferer.py +309 -0
- tests/inferers/test_saliency_inferer.py +55 -0
- tests/inferers/test_slice_inferer.py +57 -0
- tests/inferers/test_sliding_window_inference.py +377 -0
- tests/inferers/test_sliding_window_splitter.py +284 -0
- tests/inferers/test_wsi_sliding_window_splitter.py +249 -0
- tests/inferers/test_zarr_avg_merger.py +326 -0
- tests/integration/__init__.py +10 -0
- tests/integration/test_auto3dseg_ensemble.py +211 -0
- tests/integration/test_auto3dseg_hpo.py +189 -0
- tests/integration/test_deepedit_interaction.py +122 -0
- tests/integration/test_downsample_block.py +50 -0
- tests/integration/test_hovernet_nuclear_type_post_processingd.py +71 -0
- tests/integration/test_integration_autorunner.py +201 -0
- tests/integration/test_integration_bundle_run.py +240 -0
- tests/integration/test_integration_classification_2d.py +282 -0
- tests/integration/test_integration_determinism.py +95 -0
- tests/integration/test_integration_fast_train.py +231 -0
- tests/integration/test_integration_gpu_customization.py +159 -0
- tests/integration/test_integration_lazy_samples.py +219 -0
- tests/integration/test_integration_nnunetv2_runner.py +96 -0
- tests/integration/test_integration_segmentation_3d.py +304 -0
- tests/integration/test_integration_sliding_window.py +100 -0
- tests/integration/test_integration_stn.py +133 -0
- tests/integration/test_integration_unet_2d.py +67 -0
- tests/integration/test_integration_workers.py +61 -0
- tests/integration/test_integration_workflows.py +365 -0
- tests/integration/test_integration_workflows_adversarial.py +173 -0
- tests/integration/test_integration_workflows_gan.py +158 -0
- tests/integration/test_loader_semaphore.py +48 -0
- tests/integration/test_mapping_filed.py +122 -0
- tests/integration/test_meta_affine.py +183 -0
- tests/integration/test_metatensor_integration.py +114 -0
- tests/integration/test_module_list.py +76 -0
- tests/integration/test_one_of.py +283 -0
- tests/integration/test_pad_collation.py +124 -0
- tests/integration/test_reg_loss_integration.py +107 -0
- tests/integration/test_retinanet_predict_utils.py +154 -0
- tests/integration/test_seg_loss_integration.py +159 -0
- tests/integration/test_spatial_combine_transforms.py +185 -0
- tests/integration/test_testtimeaugmentation.py +186 -0
- tests/integration/test_vis_gradbased.py +69 -0
- tests/integration/test_vista3d_utils.py +159 -0
- tests/losses/__init__.py +10 -0
- tests/losses/deform/__init__.py +10 -0
- tests/losses/deform/test_bending_energy.py +88 -0
- tests/losses/deform/test_diffusion_loss.py +117 -0
- tests/losses/image_dissimilarity/__init__.py +10 -0
- tests/losses/image_dissimilarity/test_global_mutual_information_loss.py +150 -0
- tests/losses/image_dissimilarity/test_local_normalized_cross_correlation_loss.py +162 -0
- tests/losses/test_adversarial_loss.py +94 -0
- tests/losses/test_barlow_twins_loss.py +109 -0
- tests/losses/test_cldice_loss.py +51 -0
- tests/losses/test_contrastive_loss.py +86 -0
- tests/losses/test_dice_ce_loss.py +123 -0
- tests/losses/test_dice_focal_loss.py +124 -0
- tests/losses/test_dice_loss.py +227 -0
- tests/losses/test_ds_loss.py +189 -0
- tests/losses/test_focal_loss.py +379 -0
- tests/losses/test_generalized_dice_focal_loss.py +85 -0
- tests/losses/test_generalized_dice_loss.py +221 -0
- tests/losses/test_generalized_wasserstein_dice_loss.py +234 -0
- tests/losses/test_giou_loss.py +62 -0
- tests/losses/test_hausdorff_loss.py +264 -0
- tests/losses/test_masked_dice_loss.py +152 -0
- tests/losses/test_masked_loss.py +87 -0
- tests/losses/test_multi_scale.py +86 -0
- tests/losses/test_nacl_loss.py +167 -0
- tests/losses/test_perceptual_loss.py +122 -0
- tests/losses/test_spectral_loss.py +86 -0
- tests/losses/test_ssim_loss.py +59 -0
- tests/losses/test_sure_loss.py +72 -0
- tests/losses/test_tversky_loss.py +198 -0
- tests/losses/test_unified_focal_loss.py +66 -0
- tests/metrics/__init__.py +10 -0
- tests/metrics/test_compute_confusion_matrix.py +294 -0
- tests/metrics/test_compute_f_beta.py +80 -0
- tests/metrics/test_compute_fid_metric.py +40 -0
- tests/metrics/test_compute_froc.py +143 -0
- tests/metrics/test_compute_generalized_dice.py +240 -0
- tests/metrics/test_compute_meandice.py +306 -0
- tests/metrics/test_compute_meaniou.py +223 -0
- tests/metrics/test_compute_mmd_metric.py +56 -0
- tests/metrics/test_compute_multiscalessim_metric.py +83 -0
- tests/metrics/test_compute_panoptic_quality.py +113 -0
- tests/metrics/test_compute_regression_metrics.py +196 -0
- tests/metrics/test_compute_roc_auc.py +155 -0
- tests/metrics/test_compute_variance.py +147 -0
- tests/metrics/test_cumulative.py +63 -0
- tests/metrics/test_cumulative_average.py +74 -0
- tests/metrics/test_cumulative_average_dist.py +48 -0
- tests/metrics/test_hausdorff_distance.py +209 -0
- tests/metrics/test_label_quality_score.py +134 -0
- tests/metrics/test_loss_metric.py +57 -0
- tests/metrics/test_metrics_reloaded.py +96 -0
- tests/metrics/test_ssim_metric.py +78 -0
- tests/metrics/test_surface_dice.py +416 -0
- tests/metrics/test_surface_distance.py +186 -0
- tests/networks/__init__.py +10 -0
- tests/networks/blocks/__init__.py +10 -0
- tests/networks/blocks/dints_block/__init__.py +10 -0
- tests/networks/blocks/dints_block/test_acn_block.py +41 -0
- tests/networks/blocks/dints_block/test_factorized_increase.py +37 -0
- tests/networks/blocks/dints_block/test_factorized_reduce.py +37 -0
- tests/networks/blocks/dints_block/test_p3d_block.py +78 -0
- tests/networks/blocks/test_adn.py +86 -0
- tests/networks/blocks/test_convolutions.py +156 -0
- tests/networks/blocks/test_crf_cpu.py +513 -0
- tests/networks/blocks/test_crf_cuda.py +528 -0
- tests/networks/blocks/test_crossattention.py +185 -0
- tests/networks/blocks/test_denseblock.py +105 -0
- tests/networks/blocks/test_dynunet_block.py +116 -0
- tests/networks/blocks/test_fpn_block.py +88 -0
- tests/networks/blocks/test_localnet_block.py +121 -0
- tests/networks/blocks/test_mlp.py +78 -0
- tests/networks/blocks/test_patchembedding.py +212 -0
- tests/networks/blocks/test_regunet_block.py +103 -0
- tests/networks/blocks/test_se_block.py +85 -0
- tests/networks/blocks/test_se_blocks.py +78 -0
- tests/networks/blocks/test_segresnet_block.py +57 -0
- tests/networks/blocks/test_selfattention.py +232 -0
- tests/networks/blocks/test_simple_aspp.py +87 -0
- tests/networks/blocks/test_spatialattention.py +55 -0
- tests/networks/blocks/test_subpixel_upsample.py +87 -0
- tests/networks/blocks/test_text_encoding.py +49 -0
- tests/networks/blocks/test_transformerblock.py +90 -0
- tests/networks/blocks/test_unetr_block.py +158 -0
- tests/networks/blocks/test_upsample_block.py +134 -0
- tests/networks/blocks/warp/__init__.py +10 -0
- tests/networks/blocks/warp/test_dvf2ddf.py +72 -0
- tests/networks/blocks/warp/test_warp.py +250 -0
- tests/networks/layers/__init__.py +10 -0
- tests/networks/layers/filtering/__init__.py +10 -0
- tests/networks/layers/filtering/test_bilateral_approx_cpu.py +399 -0
- tests/networks/layers/filtering/test_bilateral_approx_cuda.py +404 -0
- tests/networks/layers/filtering/test_bilateral_precise.py +437 -0
- tests/networks/layers/filtering/test_phl_cpu.py +259 -0
- tests/networks/layers/filtering/test_phl_cuda.py +167 -0
- tests/networks/layers/filtering/test_trainable_bilateral.py +474 -0
- tests/networks/layers/filtering/test_trainable_joint_bilateral.py +609 -0
- tests/networks/layers/test_affine_transform.py +385 -0
- tests/networks/layers/test_apply_filter.py +89 -0
- tests/networks/layers/test_channel_pad.py +51 -0
- tests/networks/layers/test_conjugate_gradient.py +56 -0
- tests/networks/layers/test_drop_path.py +46 -0
- tests/networks/layers/test_gaussian.py +317 -0
- tests/networks/layers/test_gaussian_filter.py +206 -0
- tests/networks/layers/test_get_layers.py +65 -0
- tests/networks/layers/test_gmm.py +314 -0
- tests/networks/layers/test_grid_pull.py +93 -0
- tests/networks/layers/test_hilbert_transform.py +131 -0
- tests/networks/layers/test_lltm.py +62 -0
- tests/networks/layers/test_median_filter.py +52 -0
- tests/networks/layers/test_polyval.py +55 -0
- tests/networks/layers/test_preset_filters.py +136 -0
- tests/networks/layers/test_savitzky_golay_filter.py +141 -0
- tests/networks/layers/test_separable_filter.py +87 -0
- tests/networks/layers/test_skip_connection.py +48 -0
- tests/networks/layers/test_vector_quantizer.py +89 -0
- tests/networks/layers/test_weight_init.py +50 -0
- tests/networks/nets/__init__.py +10 -0
- tests/networks/nets/dints/__init__.py +10 -0
- tests/networks/nets/dints/test_dints_cell.py +110 -0
- tests/networks/nets/dints/test_dints_mixop.py +84 -0
- tests/networks/nets/regunet/__init__.py +10 -0
- tests/networks/nets/regunet/test_localnet.py +86 -0
- tests/networks/nets/regunet/test_regunet.py +88 -0
- tests/networks/nets/test_ahnet.py +224 -0
- tests/networks/nets/test_attentionunet.py +88 -0
- tests/networks/nets/test_autoencoder.py +95 -0
- tests/networks/nets/test_autoencoderkl.py +337 -0
- tests/networks/nets/test_basic_unet.py +102 -0
- tests/networks/nets/test_basic_unetplusplus.py +109 -0
- tests/networks/nets/test_bundle_init_bundle.py +55 -0
- tests/networks/nets/test_cell_sam_wrapper.py +58 -0
- tests/networks/nets/test_controlnet.py +215 -0
- tests/networks/nets/test_daf3d.py +62 -0
- tests/networks/nets/test_densenet.py +121 -0
- tests/networks/nets/test_diffusion_model_unet.py +585 -0
- tests/networks/nets/test_dints_network.py +168 -0
- tests/networks/nets/test_discriminator.py +59 -0
- tests/networks/nets/test_dynunet.py +181 -0
- tests/networks/nets/test_efficientnet.py +400 -0
- tests/networks/nets/test_flexible_unet.py +341 -0
- tests/networks/nets/test_fullyconnectednet.py +69 -0
- tests/networks/nets/test_generator.py +59 -0
- tests/networks/nets/test_globalnet.py +103 -0
- tests/networks/nets/test_highresnet.py +67 -0
- tests/networks/nets/test_hovernet.py +218 -0
- tests/networks/nets/test_mednext.py +122 -0
- tests/networks/nets/test_milmodel.py +92 -0
- tests/networks/nets/test_net_adapter.py +68 -0
- tests/networks/nets/test_network_consistency.py +86 -0
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- tests/utils/test_evenly_divisible_all_gather_dist.py +50 -0
- tests/utils/test_get_package_version.py +34 -0
- tests/utils/test_handler_logfile.py +84 -0
- tests/utils/test_handler_metric_logger.py +62 -0
- tests/utils/test_list_to_dict.py +43 -0
- tests/utils/test_look_up_option.py +87 -0
- tests/utils/test_optional_import.py +80 -0
- tests/utils/test_pad_mode.py +39 -0
- tests/utils/test_profiling.py +208 -0
- tests/utils/test_rankfilter_dist.py +77 -0
- tests/utils/test_require_pkg.py +83 -0
- tests/utils/test_sample_slices.py +43 -0
- tests/utils/test_set_determinism.py +74 -0
- tests/utils/test_squeeze_unsqueeze.py +71 -0
- tests/utils/test_state_cacher.py +67 -0
- tests/utils/test_torchscript_utils.py +113 -0
- tests/utils/test_version.py +91 -0
- tests/utils/test_version_after.py +65 -0
- tests/utils/type_conversion/__init__.py +10 -0
- tests/utils/type_conversion/test_convert_data_type.py +152 -0
- tests/utils/type_conversion/test_get_equivalent_dtype.py +65 -0
- tests/utils/type_conversion/test_safe_dtype_range.py +99 -0
- tests/visualize/__init__.py +10 -0
- tests/visualize/test_img2tensorboard.py +46 -0
- tests/visualize/test_occlusion_sensitivity.py +128 -0
- tests/visualize/test_plot_2d_or_3d_image.py +74 -0
- tests/visualize/test_vis_cam.py +98 -0
- tests/visualize/test_vis_gradcam.py +211 -0
- tests/visualize/utils/__init__.py +10 -0
- tests/visualize/utils/test_blend_images.py +63 -0
- tests/visualize/utils/test_matshow3d.py +133 -0
- monai_weekly-1.5.dev2505.dist-info/RECORD +0 -427
- {monai_weekly-1.5.dev2505.dist-info → monai_weekly-1.5.dev2507.dist-info}/LICENSE +0 -0
- {monai_weekly-1.5.dev2505.dist-info → monai_weekly-1.5.dev2507.dist-info}/WHEEL +0 -0
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# Copyright (c) MONAI Consortium
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# Licensed under the Apache License, Version 2.0 (the "License");
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# you may not use this file except in compliance with the License.
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# You may obtain a copy of the License at
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# http://www.apache.org/licenses/LICENSE-2.0
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# Unless required by applicable law or agreed to in writing, software
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# distributed under the License is distributed on an "AS IS" BASIS,
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# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
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# See the License for the specific language governing permissions and
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# limitations under the License.
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from __future__ import annotations
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import unittest
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import numpy as np
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import torch
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from parameterized import parameterized
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from monai.data.meta_obj import set_track_meta
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from monai.data.meta_tensor import MetaTensor
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from monai.data.utils import affine_to_spacing
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from monai.transforms import Spacingd
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from monai.utils import ensure_tuple_rep
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from tests.lazy_transforms_utils import test_resampler_lazy
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from tests.test_utils import TEST_DEVICES, assert_allclose, skip_if_quick
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TESTS: list[tuple] = []
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for device in TEST_DEVICES:
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TESTS.append(
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(
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"spacing 3d",
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{"image": MetaTensor(torch.ones((2, 10, 15, 20)), affine=torch.eye(4))},
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dict(keys="image", pixdim=(1, 2, 1.4)),
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(2, 10, 8, 15),
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torch.as_tensor(np.diag([1, 2, 1.4, 1.0])),
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*device,
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)
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)
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TESTS.append(
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(
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"spacing 2d",
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{"image": MetaTensor(torch.ones((2, 10, 20)), affine=torch.eye(3))},
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dict(keys="image", pixdim=(1, 2)),
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(2, 10, 10),
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torch.as_tensor(np.diag((1, 2, 1))),
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*device,
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)
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)
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TESTS.append(
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(
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"spacing 2d no metadata",
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{"image": MetaTensor(torch.ones((2, 10, 20)))},
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dict(keys="image", pixdim=(1, 2)),
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(2, 10, 10),
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torch.as_tensor(np.diag((1, 2, 1, 1))),
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*device,
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)
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)
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TESTS.append(
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(
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"interp all",
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{
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"image": MetaTensor(np.arange(20).reshape((2, 1, 10)), affine=torch.eye(4)),
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"seg": MetaTensor(torch.ones((2, 1, 10)), affine=torch.eye(4)),
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},
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dict(keys=("image", "seg"), mode="nearest", pixdim=(1, 0.2)),
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(2, 1, 46),
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torch.as_tensor(np.diag((1, 0.2, 1, 1))),
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*device,
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)
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)
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TESTS.append(
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(
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"interp sep",
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{
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"image": MetaTensor(torch.ones((2, 1, 10)), affine=torch.eye(4)),
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"seg": MetaTensor(torch.ones((2, 1, 10)), affine=torch.eye(4)),
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},
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dict(keys=("image", "seg"), mode=("bilinear", "nearest"), pixdim=(1, 0.2)),
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(2, 1, 46),
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torch.as_tensor(np.diag((1, 0.2, 1, 1))),
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*device,
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)
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)
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TESTS.append(
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(
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"interp sep",
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{
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"image": MetaTensor(torch.ones((2, 1, 10)), affine=torch.eye(4)),
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"seg1": MetaTensor(torch.ones((2, 1, 10)), affine=torch.diag(torch.tensor([2, 2, 2, 1]))),
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"seg2": MetaTensor(torch.ones((2, 1, 10)), affine=torch.eye(4)),
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},
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dict(keys=("image", "seg1", "seg2"), mode=("bilinear", "nearest", "nearest"), pixdim=(1, 1, 1)),
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(2, 1, 10),
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torch.as_tensor(np.diag((1, 1, 1, 1))),
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*device,
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)
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)
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TESTS_TORCH = []
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for track_meta in (False, True):
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for device in TEST_DEVICES:
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TESTS_TORCH.append([{"keys": "seg", "pixdim": [0.2, 0.3, 1]}, torch.ones(2, 1, 2, 3), track_meta, *device])
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class TestSpacingDCase(unittest.TestCase):
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@parameterized.expand(TESTS)
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def test_spacingd(self, _, data, kw_args, expected_shape, expected_affine, device):
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data = {k: v.to(device) for k, v in data.items()}
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tr = Spacingd(**kw_args)
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call_param = {"data": data}
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res = tr(**call_param)
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# test lazy
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if not isinstance(kw_args["keys"], str): # multiple keys
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kw_args["mode"] = ensure_tuple_rep(kw_args["mode"], len(kw_args["keys"]))
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init_param = kw_args.copy()
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for key, mode in zip(kw_args["keys"], kw_args["mode"]):
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init_param["keys"], init_param["mode"] = key, mode
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test_resampler_lazy(tr, res, init_param, call_param, output_key=key)
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else:
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test_resampler_lazy(tr, res, kw_args, call_param, output_key=kw_args["keys"])
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in_img = data["image"]
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out_img = res["image"]
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self.assertEqual(in_img.device, out_img.device)
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# no change in number of keys
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self.assertEqual(tuple(sorted(data)), tuple(sorted(res)))
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np.testing.assert_allclose(out_img.shape, expected_shape)
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assert_allclose(out_img.affine, expected_affine)
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@parameterized.expand(TESTS_TORCH)
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def test_orntd_torch(self, init_param, img: torch.Tensor, track_meta: bool, device):
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set_track_meta(track_meta)
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tr = Spacingd(**init_param)
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call_param = {"data": {"seg": img.to(device)}}
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res_data = tr(**call_param) # type: ignore
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res = res_data["seg"]
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if track_meta:
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test_resampler_lazy(tr, res_data, init_param, call_param, output_key="seg")
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self.assertIsInstance(res, MetaTensor)
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assert isinstance(res, MetaTensor) # for mypy type narrowing
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new_spacing = affine_to_spacing(res.affine, 3)
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assert_allclose(new_spacing, init_param["pixdim"], type_test=False)
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self.assertNotEqual(img.shape, res.shape)
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else:
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self.assertIsInstance(res, torch.Tensor)
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self.assertNotIsInstance(res, MetaTensor)
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self.assertNotEqual(img.shape, res.shape)
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@skip_if_quick
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def test_space_same_shape(self):
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affine_1 = np.array(
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[
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[1.499277e00, 2.699563e-02, 3.805804e-02, -1.948635e02],
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[-2.685805e-02, 1.499757e00, -2.635604e-12, 4.438188e01],
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[-3.805194e-02, -5.999028e-04, 1.499517e00, 4.036536e01],
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[0.000000e00, 0.000000e00, 0.000000e00, 1.000000e00],
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]
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)
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affine_2 = np.array(
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[
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[1.499275e00, 2.692252e-02, 3.805728e-02, -1.948635e02],
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[-2.693010e-02, 1.499758e00, -4.260525e-05, 4.438188e01],
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[-3.805190e-02, -6.406730e-04, 1.499517e00, 4.036536e01],
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[0.000000e00, 0.000000e00, 0.000000e00, 1.000000e00],
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]
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)
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img_1 = MetaTensor(np.zeros((1, 238, 145, 315)), affine=affine_1)
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img_2 = MetaTensor(np.zeros((1, 238, 145, 315)), affine=affine_2)
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out = Spacingd(("img_1", "img_2"), pixdim=1)({"img_1": img_1, "img_2": img_2})
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self.assertEqual(out["img_1"].shape, out["img_2"].shape) # ensure_same_shape True
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out = Spacingd(("img_1", "img_2"), pixdim=1, ensure_same_shape=False)({"img_1": img_1, "img_2": img_2})
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self.assertNotEqual(out["img_1"].shape, out["img_2"].shape) # ensure_same_shape False
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if __name__ == "__main__":
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unittest.main()
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# Copyright (c) MONAI Consortium
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# Licensed under the Apache License, Version 2.0 (the "License");
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# you may not use this file except in compliance with the License.
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# You may obtain a copy of the License at
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# http://www.apache.org/licenses/LICENSE-2.0
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# Unless required by applicable law or agreed to in writing, software
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# distributed under the License is distributed on an "AS IS" BASIS,
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# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
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# See the License for the specific language governing permissions and
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# limitations under the License.
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from __future__ import annotations
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import unittest
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from parameterized import parameterized
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from monai.transforms import CenterScaleCrop, CenterSpatialCrop, SpatialCrop
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from tests.croppers import CropTest
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TESTS = [
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[{"roi_center": [1, 1, 1], "roi_size": [2, 2, 2]}, (3, 3, 3, 3), (3, 2, 2, 2)],
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[{"roi_center": [1, 1, 1], "roi_size": [2, 2, 2]}, (3, 1, 1, 1), (3, 1, 1, 1)],
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[{"roi_start": [0, 0, 0], "roi_end": [2, 2, 2]}, (3, 3, 3, 3), (3, 2, 2, 2)],
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[{"roi_start": [0, 0], "roi_end": [2, 2]}, (3, 3, 3, 3), (3, 2, 2, 3)],
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[{"roi_start": [0, 0, 0, 0, 0], "roi_end": [2, 2, 2, 2, 2]}, (3, 3, 3, 3), (3, 2, 2, 2)],
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[{"roi_start": [0, 0, 0, 0, 0], "roi_end": [8, 8, 8, 2, 2]}, (3, 3, 3, 3), (3, 3, 3, 3)],
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[
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{"roi_slices": [slice(s, e) for s, e in zip([None, None, None], [None, None, None])]},
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(3, 11, 12, 15),
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(3, 11, 12, 15),
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],
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[{"roi_slices": [slice(s, e) for s, e in zip([1, None, 0], [None, None, None])]}, (3, 7, 9, 11), (3, 6, 9, 11)],
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[{"roi_slices": [slice(s, e) for s, e in zip([0, None, None], [-1, None, None])]}, (3, 7, 9, 11), (3, 6, 9, 11)],
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[{"roi_slices": [slice(s, e) for s, e in zip([1, None, None], [None, None, None])]}, (3, 10, 8, 6), (3, 9, 8, 6)],
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[{"roi_slices": [slice(s, e) for s, e in zip([-1, -2, 0], [None, None, 2])]}, (3, 15, 17, 8), (3, 1, 2, 2)],
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[{"roi_slices": [slice(s, e) for s, e in zip([None, None, None], [-2, -1, 2])]}, (3, 13, 8, 6), (3, 11, 7, 2)],
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[{"roi_start": [-1, 0], "roi_end": [5, 5]}, (1, 5, 5), (1, 5, 5)],
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]
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TEST_ERRORS = [[{"roi_slices": [slice(s, e, 2) for s, e in zip([-1, -2, 0], [None, None, 2])]}]]
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TEST_LAZY_ERRORS = [[{"roi_start": [1, 0, 0], "roi_end": [1, 8, 8]}, (3, 3, 3, 3), (3, 0, 3, 3)]]
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func1 = {CenterSpatialCrop: {"roi_size": [8, 8, 6]}}
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func2 = {SpatialCrop: {"roi_center": [1, 1, 1], "roi_size": [3, 4, 3]}}
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func3 = {CenterScaleCrop: {"roi_scale": [0.6, 0.3, -1]}}
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TESTS_COMBINE = []
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TESTS_COMBINE.append([[func1, func2, func3], (3, 10, 10, 8)])
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TESTS_COMBINE.append([[func1, func2], (3, 8, 8, 4)])
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TESTS_COMBINE.append([[func1, func3], (3, 8, 8, 4)])
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class TestSpatialCrop(CropTest):
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Cropper = SpatialCrop
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@parameterized.expand(TESTS)
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def test_shape(self, input_param, input_shape, expected_shape):
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self.crop_test(input_param, input_shape, expected_shape)
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@parameterized.expand(TEST_ERRORS)
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def test_error(self, input_param):
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with self.assertRaises(ValueError):
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SpatialCrop(**input_param)
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@parameterized.expand(TESTS)
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def test_pending_ops(self, input_param, input_shape, _):
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self.crop_test_pending_ops(input_param, input_shape)
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@parameterized.expand(TEST_LAZY_ERRORS)
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def test_lazy_error(self, input_param, input_shape, _):
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with self.assertRaises(ValueError):
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return self.crop_test_pending_ops(input_param, input_shape)
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@parameterized.expand(TESTS_COMBINE)
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def test_combine_ops(self, funcs, input_shape):
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self.crop_test_combine_ops(funcs, input_shape)
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if __name__ == "__main__":
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unittest.main()
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# Copyright (c) MONAI Consortium
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# Licensed under the Apache License, Version 2.0 (the "License");
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# you may not use this file except in compliance with the License.
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# You may obtain a copy of the License at
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# http://www.apache.org/licenses/LICENSE-2.0
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# Unless required by applicable law or agreed to in writing, software
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# distributed under the License is distributed on an "AS IS" BASIS,
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# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
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# See the License for the specific language governing permissions and
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# limitations under the License.
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from __future__ import annotations
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import unittest
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from parameterized import parameterized
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from monai.transforms import SpatialCropd
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from tests.croppers import CropTest
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TESTS = [
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[
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{"keys": ["img"], "roi_center": [1, 1], "roi_size": [2, 2]},
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24
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(1, 3, 3),
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(1, 2, 2),
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(slice(None), slice(None, 2), slice(None, 2)),
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+
],
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[
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{"keys": ["img"], "roi_center": [1, 1, 1], "roi_size": [2, 2, 2]},
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(3, 3, 3, 3),
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(3, 2, 2, 2),
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(slice(None), slice(None, 2), slice(None, 2), slice(None, 2)),
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+
],
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[
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{"keys": ["img"], "roi_start": [0, 0, 0], "roi_end": [2, 2, 2]},
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(3, 3, 3, 3),
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(3, 2, 2, 2),
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(slice(None), slice(None, 2), slice(None, 2), slice(None, 2)),
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+
],
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[
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{"keys": ["img"], "roi_start": [0, 0], "roi_end": [2, 2]},
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(3, 3, 3, 3),
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(3, 2, 2, 3),
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(slice(None), slice(None, 2), slice(None, 2), slice(None)),
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+
],
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+
[
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+
{"keys": ["img"], "roi_start": [0, 0, 0, 0, 0], "roi_end": [2, 2, 2, 2, 2]},
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+
(3, 3, 3, 3),
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(3, 2, 2, 2),
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(slice(None), slice(None, 2), slice(None, 2), slice(None, 2)),
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+
],
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[
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{"keys": ["img"], "roi_slices": [slice(s, e) for s, e in zip([-1, -2, 0], [None, None, 2])]},
|
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(3, 3, 3, 3),
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(3, 1, 2, 2),
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(slice(None), slice(-1, None), slice(-2, None), slice(0, 2)),
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+
],
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]
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+
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+
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class TestSpatialCropd(CropTest):
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Cropper = SpatialCropd
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+
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@parameterized.expand(TESTS)
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+
def test_shape(self, input_param, input_shape, expected_shape, same_area):
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self.crop_test(input_param, input_shape, expected_shape, same_area)
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+
|
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@parameterized.expand(TESTS)
|
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def test_pending_ops(self, input_param, input_shape, _expected_shape, _same_area):
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self.crop_test_pending_ops(input_param, input_shape)
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+
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+
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if __name__ == "__main__":
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unittest.main()
|
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1
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# Copyright (c) MONAI Consortium
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+
# Licensed under the Apache License, Version 2.0 (the "License");
|
3
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+
# you may not use this file except in compliance with the License.
|
4
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+
# You may obtain a copy of the License at
|
5
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+
# http://www.apache.org/licenses/LICENSE-2.0
|
6
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+
# Unless required by applicable law or agreed to in writing, software
|
7
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+
# distributed under the License is distributed on an "AS IS" BASIS,
|
8
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+
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
|
9
|
+
# See the License for the specific language governing permissions and
|
10
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+
# limitations under the License.
|
11
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+
|
12
|
+
from __future__ import annotations
|
13
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+
|
14
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+
import unittest
|
15
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+
|
16
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+
from parameterized import parameterized
|
17
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+
|
18
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+
from monai.transforms import BorderPad, DivisiblePad, SpatialPad
|
19
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+
from tests.padders import PadTest
|
20
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+
|
21
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+
TESTS = []
|
22
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+
TESTS.append([{"spatial_size": [3, 4], "method": "end"}, (1, 2, 3), (1, 3, 4)])
|
23
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+
TESTS.append([{"spatial_size": [15, 4, -1], "method": "symmetric"}, (3, 8, 8, 4), (3, 15, 8, 4)])
|
24
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+
|
25
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+
func1 = {SpatialPad: {"spatial_size": [15, 4, -1], "method": "symmetric"}}
|
26
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+
func2 = {BorderPad: {"spatial_border": 2}}
|
27
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+
func3 = {DivisiblePad: {"k": 5, "method": "end"}}
|
28
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+
|
29
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+
TESTS_COMBINE = []
|
30
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+
TESTS_COMBINE.append([[func1, func2, func3], (3, 8, 8, 4), (3, 20, 15, 10)])
|
31
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+
TESTS_COMBINE.append([[func1, func2], (3, 8, 8, 4), (3, 19, 12, 8)])
|
32
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+
TESTS_COMBINE.append([[func2, func2], (3, 8, 8, 4), (3, 16, 16, 12)])
|
33
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+
|
34
|
+
|
35
|
+
class TestSpatialPad(PadTest):
|
36
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+
Padder = SpatialPad
|
37
|
+
|
38
|
+
@parameterized.expand(TESTS)
|
39
|
+
def test_pad(self, input_param, input_shape, expected_shape):
|
40
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+
self.pad_test(input_param, input_shape, expected_shape)
|
41
|
+
|
42
|
+
def test_pad_kwargs(self):
|
43
|
+
kwargs = {"spatial_size": [15, 8], "method": "end", "mode": "constant"}
|
44
|
+
unchanged_slices = [slice(None), slice(None, 8), slice(None, 4)]
|
45
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+
self.pad_test_kwargs(unchanged_slices, **kwargs)
|
46
|
+
|
47
|
+
@parameterized.expand(TESTS)
|
48
|
+
def test_pending_ops(self, input_param, input_shape, _):
|
49
|
+
self.pad_test_pending_ops(input_param, input_shape)
|
50
|
+
|
51
|
+
@parameterized.expand(TESTS_COMBINE)
|
52
|
+
def test_combine_ops(self, funcs, input_shape, expected_shape):
|
53
|
+
self.pad_test_combine_ops(funcs, input_shape, expected_shape)
|
54
|
+
|
55
|
+
|
56
|
+
if __name__ == "__main__":
|
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+
unittest.main()
|
@@ -0,0 +1,43 @@
|
|
1
|
+
# Copyright (c) MONAI Consortium
|
2
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+
# Licensed under the Apache License, Version 2.0 (the "License");
|
3
|
+
# you may not use this file except in compliance with the License.
|
4
|
+
# You may obtain a copy of the License at
|
5
|
+
# http://www.apache.org/licenses/LICENSE-2.0
|
6
|
+
# Unless required by applicable law or agreed to in writing, software
|
7
|
+
# distributed under the License is distributed on an "AS IS" BASIS,
|
8
|
+
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
|
9
|
+
# See the License for the specific language governing permissions and
|
10
|
+
# limitations under the License.
|
11
|
+
|
12
|
+
from __future__ import annotations
|
13
|
+
|
14
|
+
import unittest
|
15
|
+
|
16
|
+
from parameterized import parameterized
|
17
|
+
|
18
|
+
from monai.transforms import SpatialPadd
|
19
|
+
from tests.padders import PadTest
|
20
|
+
|
21
|
+
TESTS = [
|
22
|
+
[{"keys": ["img"], "spatial_size": [15, 8, 8], "method": "symmetric"}, (3, 8, 8, 5), (3, 15, 8, 8)],
|
23
|
+
[{"keys": ["img"], "spatial_size": [15, 8, 8], "method": "end"}, (3, 8, 8, 5), (3, 15, 8, 8)],
|
24
|
+
[{"keys": ["img"], "spatial_size": [15, 8, 8], "method": "end"}, (3, 8, 8, 5), (3, 15, 8, 8)],
|
25
|
+
[{"keys": ["img"], "spatial_size": [15, 8, -1], "method": "end"}, (3, 8, 5, 4), (3, 15, 8, 4)],
|
26
|
+
]
|
27
|
+
|
28
|
+
|
29
|
+
class TestSpatialPadd(PadTest):
|
30
|
+
Padder = SpatialPadd
|
31
|
+
|
32
|
+
@parameterized.expand(TESTS)
|
33
|
+
def test_pad(self, input_param, input_shape, expected_shape):
|
34
|
+
modes = ["constant", {"constant"}]
|
35
|
+
self.pad_test(input_param, input_shape, expected_shape, modes)
|
36
|
+
|
37
|
+
@parameterized.expand(TESTS)
|
38
|
+
def test_pending_ops(self, input_param, input_shape, _):
|
39
|
+
self.pad_test_pending_ops(input_param, input_shape)
|
40
|
+
|
41
|
+
|
42
|
+
if __name__ == "__main__":
|
43
|
+
unittest.main()
|
@@ -0,0 +1,235 @@
|
|
1
|
+
# Copyright (c) MONAI Consortium
|
2
|
+
# Licensed under the Apache License, Version 2.0 (the "License");
|
3
|
+
# you may not use this file except in compliance with the License.
|
4
|
+
# You may obtain a copy of the License at
|
5
|
+
# http://www.apache.org/licenses/LICENSE-2.0
|
6
|
+
# Unless required by applicable law or agreed to in writing, software
|
7
|
+
# distributed under the License is distributed on an "AS IS" BASIS,
|
8
|
+
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
|
9
|
+
# See the License for the specific language governing permissions and
|
10
|
+
# limitations under the License.
|
11
|
+
|
12
|
+
from __future__ import annotations
|
13
|
+
|
14
|
+
import unittest
|
15
|
+
from copy import deepcopy
|
16
|
+
|
17
|
+
import numpy as np
|
18
|
+
import torch
|
19
|
+
from parameterized import parameterized
|
20
|
+
|
21
|
+
from monai.data.meta_obj import set_track_meta
|
22
|
+
from monai.data.meta_tensor import MetaTensor
|
23
|
+
from monai.data.utils import to_affine_nd
|
24
|
+
from monai.transforms import SpatialResample
|
25
|
+
from monai.utils import optional_import
|
26
|
+
from tests.lazy_transforms_utils import test_resampler_lazy
|
27
|
+
from tests.test_utils import TEST_DEVICES, TEST_NDARRAYS_ALL, assert_allclose
|
28
|
+
|
29
|
+
TESTS = []
|
30
|
+
|
31
|
+
destinations_3d = [
|
32
|
+
torch.tensor([[1.0, 0.0, 0.0, 0.0], [0.0, -1.0, 0.0, 1.0], [0.0, 0.0, 1.0, 0.0], [0.0, 0.0, 0.0, 1.0]]),
|
33
|
+
torch.tensor([[-1.0, 0.0, 0.0, 1.0], [0.0, 1.0, 0.0, 0.0], [0.0, 0.0, 1.0, 0.0], [0.0, 0.0, 0.0, 1.0]]),
|
34
|
+
]
|
35
|
+
expected_3d = [
|
36
|
+
torch.tensor([[[[4.0, 5.0, 6.0], [1.0, 2.0, 3.0]], [[10.0, 11.0, 12.0], [7.0, 8.0, 9.0]]]]),
|
37
|
+
torch.tensor([[[[7.0, 8.0, 9.0], [10.0, 11.0, 12.0]], [[1.0, 2.0, 3.0], [4.0, 5.0, 6.0]]]]),
|
38
|
+
]
|
39
|
+
|
40
|
+
for dst, expct in zip(destinations_3d, expected_3d):
|
41
|
+
for device in TEST_DEVICES:
|
42
|
+
for align in (False, True):
|
43
|
+
interp = ("nearest", "bilinear")
|
44
|
+
for interp_mode in interp:
|
45
|
+
for padding_mode in ("zeros", "border", "reflection"):
|
46
|
+
TESTS.append(
|
47
|
+
[
|
48
|
+
torch.arange(12).reshape((1, 2, 2, 3)) + 1.0, # data
|
49
|
+
*device,
|
50
|
+
{
|
51
|
+
"dst_affine": dst,
|
52
|
+
"dtype": torch.float64,
|
53
|
+
"align_corners": align,
|
54
|
+
"mode": interp_mode,
|
55
|
+
"padding_mode": padding_mode,
|
56
|
+
},
|
57
|
+
expct,
|
58
|
+
]
|
59
|
+
)
|
60
|
+
if optional_import("cupy")[1] and optional_import("scipy.ndimage")[1]:
|
61
|
+
TESTS.append(deepcopy(TESTS[-1]))
|
62
|
+
TESTS[-1][2].update({"align_corners": True, "mode": 1, "padding_mode": "reflect"}) # type: ignore
|
63
|
+
|
64
|
+
destinations_2d = [
|
65
|
+
torch.tensor([[1.0, 0.0, 0.0], [0.0, -1.0, 1.0], [0.0, 0.0, 1.0]]), # flip the second
|
66
|
+
torch.tensor([[-1.0, 0.0, 1.0], [0.0, 1.0, 0.0], [0.0, 0.0, 1.0]]), # flip the first
|
67
|
+
]
|
68
|
+
expected_2d = [torch.tensor([[[2.0, 1.0], [4.0, 3.0]]]), torch.tensor([[[3.0, 4.0], [1.0, 2.0]]])]
|
69
|
+
|
70
|
+
for dst, expct in zip(destinations_2d, expected_2d):
|
71
|
+
for device in TEST_DEVICES:
|
72
|
+
for align in (False, True):
|
73
|
+
for interp_mode in ("nearest", "bilinear"):
|
74
|
+
TESTS.append(
|
75
|
+
[
|
76
|
+
torch.arange(4).reshape((1, 2, 2)) + 1.0,
|
77
|
+
*device,
|
78
|
+
{
|
79
|
+
"dst_affine": dst,
|
80
|
+
"dtype": torch.float32,
|
81
|
+
"align_corners": align,
|
82
|
+
"mode": interp_mode,
|
83
|
+
"padding_mode": "zeros",
|
84
|
+
},
|
85
|
+
expct,
|
86
|
+
]
|
87
|
+
)
|
88
|
+
|
89
|
+
TEST_4_5_D = []
|
90
|
+
for device in TEST_DEVICES:
|
91
|
+
for dtype in (torch.float32, torch.float64):
|
92
|
+
# 4D
|
93
|
+
TEST_4_5_D.append(
|
94
|
+
[
|
95
|
+
(1, 2, 2, 3, 1),
|
96
|
+
(1, 1, 1, 1, 2),
|
97
|
+
*device,
|
98
|
+
dtype,
|
99
|
+
torch.tensor(
|
100
|
+
[
|
101
|
+
[[[0.5, 0.0], [0.0, 2.0], [1.5, 1.0]], [[3.5, 3.0], [3.0, 5.0], [4.5, 4.0]]],
|
102
|
+
[[[6.5, 6.0], [6.0, 8.0], [7.5, 7.0]], [[9.5, 9.0], [9.0, 11.0], [10.5, 10.0]]],
|
103
|
+
]
|
104
|
+
),
|
105
|
+
]
|
106
|
+
)
|
107
|
+
# 5D
|
108
|
+
TEST_4_5_D.append(
|
109
|
+
[
|
110
|
+
(1, 2, 2, 3, 1, 1),
|
111
|
+
(1, 1, 1, 1, 2, 2),
|
112
|
+
*device,
|
113
|
+
dtype,
|
114
|
+
torch.tensor(
|
115
|
+
[
|
116
|
+
[
|
117
|
+
[[[0.0, 0.0], [0.0, 1.0]], [[0.5, 0.0], [1.5, 1.0]], [[1.0, 2.0], [2.0, 2.0]]],
|
118
|
+
[[[3.0, 3.0], [3.0, 4.0]], [[3.5, 3.0], [4.5, 4.0]], [[4.0, 5.0], [5.0, 5.0]]],
|
119
|
+
],
|
120
|
+
[
|
121
|
+
[[[6.0, 6.0], [6.0, 7.0]], [[6.5, 6.0], [7.5, 7.0]], [[7.0, 8.0], [8.0, 8.0]]],
|
122
|
+
[[[9.0, 9.0], [9.0, 10.0]], [[9.5, 9.0], [10.5, 10.0]], [[10.0, 11.0], [11.0, 11.0]]],
|
123
|
+
],
|
124
|
+
]
|
125
|
+
),
|
126
|
+
]
|
127
|
+
)
|
128
|
+
|
129
|
+
TEST_TORCH_INPUT = []
|
130
|
+
for track_meta in (True,):
|
131
|
+
for t in TEST_4_5_D:
|
132
|
+
TEST_TORCH_INPUT.append(t + [track_meta])
|
133
|
+
|
134
|
+
|
135
|
+
class TestSpatialResample(unittest.TestCase):
|
136
|
+
@parameterized.expand(TESTS)
|
137
|
+
def test_flips(self, img, device, data_param, expected_output):
|
138
|
+
for p in TEST_NDARRAYS_ALL:
|
139
|
+
img = p(img)
|
140
|
+
if isinstance(img, MetaTensor):
|
141
|
+
img.affine = torch.eye(4)
|
142
|
+
if hasattr(img, "to"):
|
143
|
+
img = img.to(device)
|
144
|
+
resampler = SpatialResample()
|
145
|
+
call_param = data_param.copy()
|
146
|
+
call_param["img"] = img
|
147
|
+
out = resampler(**call_param)
|
148
|
+
assert_allclose(out, expected_output, rtol=1e-2, atol=1e-2)
|
149
|
+
assert_allclose(to_affine_nd(len(out.shape) - 1, out.affine), call_param["dst_affine"])
|
150
|
+
|
151
|
+
test_resampler_lazy(resampler, out, init_param=None, call_param=call_param)
|
152
|
+
|
153
|
+
@parameterized.expand(TEST_4_5_D)
|
154
|
+
def test_4d_5d(self, new_shape, tile, device, dtype, expected_data):
|
155
|
+
img = np.arange(12).reshape(new_shape)
|
156
|
+
img = np.tile(img, tile)
|
157
|
+
img = MetaTensor(img).to(device)
|
158
|
+
|
159
|
+
dst = torch.tensor([[1.0, 0.0, 0.0, 0.0], [0.0, 1.0, 0.0, 0.0], [0.0, 0.0, -1.0, 1.5], [0.0, 0.0, 0.0, 1.0]])
|
160
|
+
dst = dst.to(dtype)
|
161
|
+
init_param = {"dtype": dtype, "align_corners": True}
|
162
|
+
call_param = {"img": img, "dst_affine": dst, "align_corners": False}
|
163
|
+
resampler = SpatialResample(**init_param)
|
164
|
+
out = resampler(**call_param)
|
165
|
+
assert_allclose(out, expected_data[None], rtol=1e-2, atol=1e-2)
|
166
|
+
assert_allclose(out.affine, dst.to(torch.float32), rtol=1e-2, atol=1e-2)
|
167
|
+
|
168
|
+
test_resampler_lazy(resampler, out, init_param, call_param)
|
169
|
+
|
170
|
+
@parameterized.expand(TEST_DEVICES)
|
171
|
+
def test_ill_affine(self, device):
|
172
|
+
img = MetaTensor(torch.arange(12).reshape(1, 2, 2, 3)).to(device)
|
173
|
+
ill_affine = torch.tensor([[1, 0, 0, 0], [0, 0, 0, 0], [0, 0, -1, 1.5], [0, 0, 0, 1]])
|
174
|
+
with self.assertRaises(ValueError):
|
175
|
+
img.affine = torch.eye(4)
|
176
|
+
dst_affine = ill_affine
|
177
|
+
SpatialResample()(img=img, dst_affine=dst_affine)
|
178
|
+
with self.assertRaises(ValueError):
|
179
|
+
img.affine = ill_affine
|
180
|
+
dst_affine = torch.eye(4)
|
181
|
+
SpatialResample()(img=img, dst_affine=dst_affine)
|
182
|
+
if not (optional_import("scipy")[1] and optional_import("cupy")[1]):
|
183
|
+
return
|
184
|
+
with self.assertRaises(ValueError): # requires scipy
|
185
|
+
SpatialResample(mode=1, align_corners=True)(img=img, dst_affine=dst_affine)
|
186
|
+
with self.assertRaises(ValueError):
|
187
|
+
SpatialResample(mode=1, align_corners=False)(img=img, dst_affine=dst_affine)
|
188
|
+
|
189
|
+
@parameterized.expand(TEST_TORCH_INPUT)
|
190
|
+
def test_input_torch(self, new_shape, tile, device, dtype, expected_data, track_meta):
|
191
|
+
set_track_meta(track_meta)
|
192
|
+
img = np.arange(12).reshape(new_shape)
|
193
|
+
img = torch.as_tensor(np.tile(img, tile)).to(device)
|
194
|
+
dst = torch.tensor([[1.0, 0.0, 0.0, 0.0], [0.0, 1.0, 0.0, 0.0], [0.0, 0.0, -1.0, 1.5], [0.0, 0.0, 0.0, 1.0]])
|
195
|
+
dst = dst.to(dtype).to(device)
|
196
|
+
init_param = {"dtype": dtype}
|
197
|
+
call_param = {"img": img, "dst_affine": dst}
|
198
|
+
resampler = SpatialResample(**init_param)
|
199
|
+
out = resampler(**call_param)
|
200
|
+
assert_allclose(out, expected_data[None], rtol=1e-2, atol=1e-2)
|
201
|
+
|
202
|
+
test_resampler_lazy(resampler, out, init_param, call_param)
|
203
|
+
|
204
|
+
if track_meta:
|
205
|
+
self.assertIsInstance(out, MetaTensor)
|
206
|
+
assert_allclose(out.affine, dst.to(torch.float32), rtol=1e-2, atol=1e-2)
|
207
|
+
else:
|
208
|
+
self.assertIsInstance(out, torch.Tensor)
|
209
|
+
self.assertNotIsInstance(out, MetaTensor)
|
210
|
+
|
211
|
+
@parameterized.expand(TESTS)
|
212
|
+
def test_inverse(self, img, device, data_param, expected_output):
|
213
|
+
img = MetaTensor(img, affine=torch.eye(4)).to(device)
|
214
|
+
tr = SpatialResample()
|
215
|
+
out = tr(img=img, **data_param)
|
216
|
+
assert_allclose(out, expected_output, rtol=1e-2, atol=1e-2)
|
217
|
+
assert_allclose(to_affine_nd(len(out.shape) - 1, out.affine), data_param["dst_affine"])
|
218
|
+
|
219
|
+
# inverse
|
220
|
+
out = tr.inverse(out)
|
221
|
+
assert_allclose(img, out)
|
222
|
+
expected_affine = to_affine_nd(len(out.affine) - 1, torch.eye(4))
|
223
|
+
assert_allclose(out.affine, expected_affine)
|
224
|
+
|
225
|
+
def test_unchange(self):
|
226
|
+
for i, p in enumerate(TEST_NDARRAYS_ALL):
|
227
|
+
set_track_meta(i % 2)
|
228
|
+
img = p(np.arange(12).reshape(1, 3, 4))
|
229
|
+
result = SpatialResample()(img)
|
230
|
+
assert_allclose(result, img, type_test=False)
|
231
|
+
set_track_meta(True)
|
232
|
+
|
233
|
+
|
234
|
+
if __name__ == "__main__":
|
235
|
+
unittest.main()
|